plotAmpliconCoverage {R453Plus1Toolbox} | R Documentation |
A function for visualizing the number of reads per amplicon or per MID / pico titer plate.
## S4 method for signature 'AVASet,character,logical' plotAmpliconCoverage(avaSet, type="amplicon", bothDirections=TRUE, cex.names=0.8, cex.axis=0.8, las=3, col=c(rgb(217/255, 214/255, 209/255), rgb(173/255, 38/255, 36/255)), ...)
avaSet |
An instance of AVASet. |
type |
A character vector specifying the type of plot. |
bothDirections |
A logical value determining whether the plot sums forward and reverse reads or shows them separately. |
cex.names |
Font size of the amplicon name labels. |
cex.axis |
Font size of axes' labels. |
las |
Orientation of amplicon name labels. |
col |
Colors used in the plot. |
... |
Arguments to be passed to methods, such as graphical parameters (see ‘par’). |
If the argumnet type is “amplicon”, the number of reads for each amplicon are visualized. In case of a AVASet with one sample, a barplot with one bar for each amplicon is created. In case of more than one sample, a boxplot with one box for each amplicon is plotted. If type is “mid”, a boxplot with one box for each MID is created. If type is “ptp”, a boxplot with one box for each pico titer plate is created.
Hans-Ulrich Klein
## Not run: data(avaSetExample) plotAmpliconCoverage(avaSetExample) plotAmpliconCoverage(avaSetExample[,1]) ## End(Not run)